[modeller_usage] In what are the initial structures different?

[BIN ZHANG <zhngbn@gmail.com>]

Dear All:

I have a question about the differences of the initial structure built  
for homology modeling. Can anyone tell me how exactly are these  
initial structures different? Do they differ in the secondary  
structures in uncertain regions? I cannot find this information in the  
manual.
For example, by using

a = automodel()
a.starting_model = 1
a.ending_model = 50

I can built 50 different homology models starting from different  
initial structures, but I have want to know how these different  
initial structures are constructed.
Thanks very much for help.

Best,
Bin